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Kimura2Paramter to ks value/Time #170

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manoharbisht1998 opened this issue Apr 28, 2024 · 2 comments
Open

Kimura2Paramter to ks value/Time #170

manoharbisht1998 opened this issue Apr 28, 2024 · 2 comments
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@manoharbisht1998
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Hi
I have repeat landscape with Kimura2Parameter on x axis. I want to check the time of the burst of LTRs by using that repeat landscape. is there a way to convert the Kimura2Parameter values to time or ks value?

Thanks

@oushujun
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T = K/2u, where K is divergence which can be estimated using the K2P model. The default is the JC69 model. u is mutation rate (per bp per year).

@manoharbisht1998
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Thank you for the answer. However, I have the repeat landscape (attached below)
Screenshot (70)
I want to calculate the insertion time. According to formula T =K/2u, isn't it similar to Ks time estimation; viz T=Ks/2u? Can we say that K2P value is equal to Ks?

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